Two simple quantitative assays for trypsin inhibitors using immobilized trypsin.

Two new methods for quantitative assay of trypsin inhibitors, suitable for large numbers of samples, are described. The assay methods use trypsin-Sepharose conjugates incorporated into agarose gel slabs. Trypsin inhibitors are allowed to diffuse into, or are electrophoretically moved through, the slabs, and the consequent areas of inactivation of immobilized trypsin are visualized using a histochemical enzyme substrate. Quantitation of the trypsin inhibitor content of samples can be made on the basis of the inactivated areas. The limit of detection is 1–2 μg of soybean trypsin inhibitor and determinations are reproducible to 10% or better. Measured trypsin inhibitor contents of several legume species and varieties agree with spectrophotometric determinations.     

A hand-held photometer for quantitative dot-immunobinding assays

A simple multichannel transmission photometer is presented. This instrument is designed to give a quantitative result from dot-immunobinding assays. The optoelectronic components of the system (yellow GaP light-emitting diode and CdS photoresistor) have been selected to match the absorbance maximum of the product generated by the peroxidase-catalyzed oxidation of 4-chloro-1-naphthol. The standard deviation of duplicate measures is lower than 0.5% on a single channel and lower than 1.5% on different channels. The photometer is able to read linearly the absorbance of samples up to a value of A585 = 3.0. As an application example, the photometer was used to read the results of the titration of sera of Leishmania-infected dogs on Leishmania donovani antigens.     

Standard quantitative assays for apoptosis

The term apoptosis refers to a peculiar morphology of cell death. It is of special interest because it can be triggered physiologically (and pathologically), and it is regulated by the actions of specific gene products. Therefore, it can in principle be activated and suppressed by medical intervention. It thus is often important to determine whether cells are dying by apoptosis (or its less regulated counterpart, necrosis) and also to quantity the effect in a population of cells. Here the classic methods of apoptosis quantitation are described; they will be of particular use to those whose laboratories are set up for standard microscopical and biochemical techniques, who do apoptosis assays infrequently but wish them to be widely accepted and reproducible. A simple microscopic observation, using blue light illumination and a pair of fluorescent dyes, is recommended for most applications.     

An image analysis toolbox for high-throughput C. elegans assays

We present a toolbox for high-throughput screening of image-based Caenorhabditis elegans phenotypes. The image analysis algorithms measure morphological phenotypes in individual worms and are effective for a variety of assays and imaging systems. This WormToolbox is available through the open-source CellProfiler project and enables objective scoring of whole-worm high-throughput image-based assays of C. elegans for the study of diverse biological pathways that are relevant to human disease.     

A BASIC computer program for analyzing endpoint assays.

We present a computer program that is based on Karber's approximation of endpoint titers, written in GW-BASIC and provides an easy means for analyzing the results of dilution endpoint assays. The program provides estimates of standard error that are not possible from other statistical procedures for this type of data.     

A simple electronic volume cell sorter for clonogenicity assays

A single-parameter electronic volume flow cell sorter that can be easily and inexpensively constructed using existing technology is described. The instrument is designed for ease and flexibility of operation, including such features as a large open area for recovering sorted cells into a variety of dishes or vessels; a remote, electrically activated fluidics system; a mechanism for heating or cooling samples during sorting; a simple arrangement for monitoring and adjusting the sorting control parameters; and an interface to a standard IBM personal computer for data acquisition, analysis, and control of the sorting windows. Several researchers in our laboratory now routinely use this sorter for plating precise numbers of cells directly into culture dishes in an aseptic manner for clonogenicity assays. The instrument can sort cells at rates of up to approximately 2,000 per second with greater than 80% sorting efficiency and no cytotoxicity. An advantage of this system is that the sorting windows can be set to exclude acellular debris and include either the entire cell volume distribution or a subset thereof. Applications of the instrument are detailed, including 1) precise cell plating for low-dose survival studies, 2) separation of cells into age compartments, and 3) rapid inoculation of single cells into multiwell dishes for cloning studies. Advantages of this technology for cell survival studies are detailed, along with some limitations to its applicability.     

A simple technique for reducing edge effect in cell-based assays

Several factors are known to increase the noise and variability of cell-based assays used for high-throughput screening. In particular, edge effects can result in an unacceptably high plate rejection rate in screening runs. In an effort to minimize these variations, the authors analyzed a number of factors that could contribute to edge effects in cell-based assays. They found that pre-incubation of newly seeded plates in ambient conditions (air at room temperature) resulted in even distribution of the cells in each well. In contrast, when newly seeded plates were placed directly in the CO(2) incubator, an uneven distribution of cells occurred in wells around the plate periphery, resulting in increased edge effect. Here, the authors show that the simple, inexpensive approach of incubating newly seeded plates at room temperature before placing them in a 37 degrees C CO(2) incubator yields a significant reduction in edge effect.     

A simple staining procedure for the characterisation of Basidiomycetes pellets by image analysis

Summary A simple staining procedure, associated with image analysis, was used to discriminate two zones (the filamentous zones and the compacted cores) in aggregates of fungal biomass according to their accessibility for an agent of the medium. The application of the method to batch fermentations of Schizophyllum commune showed a higher proportion of loosely entangled particles (clumps) and thinner filamentous outer zones obtained at a high agitation speed (500 rpm) compared to low agitation speeds (120–200 rpm).     

A convenient quantitative synthesis of methylglyoxal for glyoxalase I assays

A simple, convenient, and quantitative method for the preparation of methylglyoxal (pyruvaldehyde) solutions is described. The method involved acid hydrolysis (5% H₂SO₄) of pyruvaldehyde dimethyl acetal at 100°C for 25 min. The hydrolysis method is quite reproducible and does not require standardization of the methylglyoxal solutions. The preparations of methylglyoxal by the procedure described have been used in the study of glyoxalase I activity.     

A simple, rapid and quantitative method for preparing Arabidopsis protein extracts for immunoblot analysis

Although Arabidopsis has numerous well documented advantages for genetic and molecular analyses, its small size can be a limitation for biochemical and immunochemical assays requiring protein extraction. We have developed a rapid method to extract total protein from small amounts of Arabidopsis tissue that can be used for quantitative immunoblot analysis. The procedure involves direct extraction of tissue into SDS-containing buffer under conditions permitting immediate protein quantification in the extract, using commercially available kits without prior fractionation. This approach provides maximal extraction and quantitative recovery of total cellular protein, together with accurate evaluation of target protein levels as a proportion of the total. We have examined the utility and sensitivity of the procedure using monoclonal antibodies to phytochromes A and C (phyA and phyC), which are high- and low-abundance members, respectively, of the phytochrome family in Arabidopsis. Both phytochromes could be rapidly and readily quantified in the tissues examined, with phyC being detectable in extracts representing as few as five dark-grown seedlings, two light-grown seedlings, or half a single leaf from 3-week-old adult plants. The data indicate that the procedure may have broad utility for the detection and quantitative analysis of many proteins, including those of low abundance, in a variety of applications in Arabidopsis. In one such application, we used transgenic Arabidopsis phyC-overexpressor seedlings to demonstrate that the procedure can be used to detect transgene-encoded protein early at the segregating T2 generation, thereby offering the capacity for accelerated screening and selection of lines engineered to overexpress target proteins.